>input_sequence_81287
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------------------------------------------------------------ATGAGGAAGGGCAGCGAGTG
CACCAGGATCAGCCCGGAGACCACCACCAGCGGCAACCCTATGTTCTCCCGGCAGGCGAGCAGGTCCGGCGCCCGGACGG
AACG------------GGACGCCTGGCCAAGGCAGGCGCGCGGCGGCTGCCGCCTGCTGAGGACCGCGCGGTGGACGGCC
GCCAGGTTCTACCGGCGCGCGAGGGTGAGCGTCGTCACGGCCTTCTGGTCGGCCCCGAGCAGGAAAGGTTCTTCCAGTTC
CACTTCCAGTGCTGCTTCACGCTCGCCGGAGTATACGCCGGCGAGGAACAGCAGCAGGCGGCAATCCGGGCCGGTGGTCG
TCGCCGATGACTCCCACAAGAGCGAAGCCGTGGAGGAGTGCATCAGGTTCATGAACTCCTCGTCCAGGAAGTACCGGTAG
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>chr3B_1_TraesCS3B01G399700
GCCAGAGCCGCCTGCCGGCACGCCGCCGTACTGCAGCCCCGCAGCGACCTGTCTGCCGGAGCAGACACGCAGAGCAGGGG
GGCCCTGGCTGCCTGCCCGTCGATCGATCAGCGACGATGCATGCAGCGTCCCGTTTCCCGAGAGAAAACGCCCCCCCGCG
ACTGCGCAATGATTGGTGCCCGCGGCGGCCACCGGTCCGGTCGCCCG-------CGCCATGCCGCACACGTCGCGTCCCA
TGTCACCGTGCCTCGAACGGCACGCGCGCCCCCACCCCTGTCCCTCGCGTCGCGGCGAGC------ACCGTCGCGTGCCC
CGCCCCGTCAATTCCATGTTCCCCCG----GCCCAGCGGCGGGCGGGCGTCGCCTTGCGCGCGCTGGCGCGCGGCGCCAT
TGGCCGGGGACGGGAGGGGGTCCGGCCTGCCGGCCTCAAAAGAGCCGCCCGGCCCAGCGCCTCCCTCGCTGCATCGACCG
CGTCCTTTTCCCCCCTTTCCCTTTTCTCTCCCATTCAGGGCACCTCGGCTGGGTTCGCGAGATCTGCTCGCACCGCACCG
CTCGCTTCCACGGGAGATATTCTCCGGCCACCACCACCACCGCTAGGCAACAAGAATATACTGCGCCGGTGCGCCCC-AC
CATCG------------------------------------------------------CTAGGCGGTCATGTATTGAAG
GATCTGGAAGAGGTGATGCGTACACCTCTTC-----ATCATCGGGTTGCGTGATCTGATCGGGAGGACTACCATTTTGGC
GGTCAATTAGACCAAATTTTCCTTTCACTAGCTTGTCTCCCCGCTTTGCCTCTTTTCCTTTTTCTGAGCCATGCCTTTCA
TGCTCTTGTCACATACTCTTGCAGT----------ACCACCCTGCTGCTTTTCCTTTGAGCAGGCTGCATAGATAC----
-TCTTGCCTTGCCTTGCCTCATCATAGTATAAAACGAGGCGTGCCTAGGCCACCCTG----GTGTGATACGTAGACACTG
ACCCGCCATCTCGGGCTAGCAAGCAA----GCTAGGCATCCTTCCATCCTCCGGTCGGCAATGAGGAAGGGCAGCGAGTG
CACCAGGATCAGCCCGGAGACCACCACCAGCGGCAACCCTATGTTCTCCCGGCAGGCGAGCAGGTCCGGCGCCCGGACGG
AACG------------GGACGCCTGGCCAAGGCAGGCGCGCGGCGGCTGCCGCCTGCTGAGGACCGCGCGGTGGACGGCC
GCCAGGTTCTACCGGCGCGCGAGGGTGAGCGTCGTCACGGCCTTCTGGTCGGCCCCGAGCAGGAAAGGTTCTTCCAGTTC
CACTTCCAGTGCTGCTTCACGCTCGCCGGAGTATACGCCGGCGAGGAACAGCAGCAGGCGGCAATCCGGGCCGGTGGTCG
TCGCCGATGACTCCCACAAGAGCGAAGCCGTGGAGGAGTGCATCAGGTTCATGAACTCCTCGTCCAGGAAGTACCGGTAG
TT-----TTTCTGTGATTCTATTTACACCCTCTGCGCGGATGCT-AGCGTCTTCCCCCCTGTAATTTCCCCCCCTTCTTG
ATCTTGGCCTTTCATCTGTGTGCGCATTTGATCTAAGCTTGTGGAAATGATACGTACGGCCGGATGCATCTTTCTAATCT
CTTCTGTGCTCTGGAATCTGCCGCTGTTACA--TTCAACATTTGTGCTTGTCAATATTTGTCACCTTGTGCGAGCCCAGC
CACCAACGAGCTAATTTCTGGTGTTCTCCAACTTCAGATTTTGTCTTGTTAATTTTGAATGTCGCAATAATCCAATAGTT
TGATCTTTCTGAGAAAACATGCATCCCATCGATTTTCTGTTACAGAAACGCCTTGATCCAATAGAGTTATCAAGATACAG
AAAAAAAAAGGTGCATAAGAATGAATGGGAGATTCCCAACGTACCACCCAT-AGCGCAAACAAAATCATGGCAAGGCACA
TCATAGAGCAACCAGATCATACCCCTGA---------GAAACATTGCAAAAAAAGATTCATAAATGTGTGCTGAAAAACA
AACAAACTAACGCGACAGCAAATATATTTGTACAAGATTTCTCGATTTACATTTTAGAAACAATAAAACATA---TGAAG
CACGTGAAAAATTGCAATGTATAACAAGAGAAAAGAAGTTTTTTTTTTGAAACAAGGCAAAGGATTTGCCATTTCATTGA
TTAAGAAGAAGGTTTAGACAGGCCACGAAGTGGCAAGAAATAAAATCTACTCTCGCGGCATTACAACACTCAAATGCTTG
GCGCCCGCCAACGCCCAAAGCGACACCTCCTCTTTTATCTTACTAATGACGACCATCGTAGGTGCGGCCGTGTTGCGAAA
ACCTCTAGCATTGCGCTCCGTCCAAATTTCCCAGGAGATAAGCATCATTATTGAGGCGAGCGTCTTGGGGGATTCAGAGC
GAAGATATACGTTTCCATTCCACCATTCCCACACCGAGCCCCTCGCTGACCAAGTAGTAGC
>chr3D_1
GCCAGAGCTGCCTGCCGGCACGCCGCCGTAC---AGCCCCGCAGCGATCTGTCTGCCGGAGCAGACACGCAGAGCAGGGG
GGGCCTGGCTGCCTGCCGGTCGATCGATCAGCGACGATGCATGCAGCGTCCCGTTTCCCGAGAGAAAACG-CCCCCCGCG
ACTGCGCAATGATTGGCGCCCGCGGCGGCCACCGGTCCGGTCGTCCG-------CGCCATGCCGCCCACGTCGCGTCCCA
TGTCACCGTGCCTCGGACGGCGCGCGCGCCCCCACCCCTGTCCCTCGCGTCGCGGCGAGCGAGAGCACCGTCGCGTGCCC
CGCCCCGTCAATTCCATGTCCCCCCGGCCGGCCCAGCGGCGG---GGCGTCGCCTTGTGTGCGCTGGTGCGCGGCGCCAT
TGGCC-GGGACGGGAGGGGGTCCGGCCTGCCGGCCTCAAAAGAGCCGCCCGGCCCAGCGCCTCCCTCGCTGCATCGACCG
CGTCCTTTTCCCCCCTTTCCCTTTTCTCTCCCATTCAGGGCACCTCGGCTGGGTTCGCCAGATCTGCTCGCGCCGCACCG
CTCGCTTCCACGGGAGATATTCTCCGGCCACCACCACCACCGCTAGGCAACAAGAATATACTGCGCCGGTGCGCCCC-AC
CACCCCCTTCTTGTCGTGTTTTCTCTTCGTGAAG----GCTGCAAGCTAAAGCCTTGGCCTTGGCGGTCAT--ATTGAAG
GATCTGGAAGAGGTGATGCGTACACCTCTTC-----ATG---GGGTTGCGTGATCTGATCGGGAGGACTACCATTTTGGT
GGTCAATTAGACCAAACTTTCCTTTCACTAGCTTGTCTCCCCGCTTTGCCTCTTTTCCTTTTTCTGAGCCATGCCTTTCA
TGCTCTTGTCACATACTCTTGCAGTGT------GTACCAGCCTGCTACTTTTCCTTTGAGCAGGCTACATAGATACTCTG
GTCTTGCCTTGCCTTGCCTCATCATAGTATAAAACGAGGCGTGCCTAGGCCACCCTGGTGTGTGTGATACGTAGACACTG
ACCCGCCATCTTGGGCTAGCAAGCAAGCAAGCTAGGCATCCATCCA---TCCGGCCGGCAATGAGGAAGGGCAGCGAGTG
CACCAGGATCAGCCCGGAGACCACCACCAGCGCCAACCCTATGTTCTCCCGGCAGGCCAGCAGGTCCGGCGCCCGGACGG
AACG------------GGACGCCCGGCCGAGGCAGGCGCGCGGCGGCTGCCGCCTGCTGAGGACCGCGCGGTGGACCGCC
GCGAGGTTCTACCGGCGCGCGAGGGTGAGCGTCGTCACGGCCTTCTGGTCGGCGCCGAGCAGGAGAGGCTCTTCCAGTTC
CACTTCCAGTGCTGCTTCGCGCTCGCCGGAGTATACGCCGGCGAGGAACAGCAGCAGGCGGCAGTCCGGGCCGGTGGCCG
TCGCCGATGACTCCCACAAGAGCGAAGCCGTGGAGGAGTGCATCAGGTTCATGAACTCCTCGTCCAGGAAGTATCGCTAG
TT-----TTTTTGTGATTCTGTTTCTACCCTCTGCGCCGATGCTAAGCGTCTTCCCCCCTGTAATTTCCCCCCCTTCTTG
TTCTTGGCCTTTCATCTGTGTGCGCATTTGATCTAAGCTTGCGGAAATGATACGTACGGCCGGATGCATCTTTCTCATCT
TTTTGGTGCTCTCAAATCTGTCGCTGTTCCA--TTCAACATTTGTGCCTGTGAATATTTGTCACCTTGTGCGAGCCCAGC
CACCAACGAGCTAATTTCTGGTGTTCTCCATGTG-CAATGACTTGATGCATTTG---------------ATCCAATAGCT
TGATCTTTCTGAGAAAACATACATCTCATCGATTTTCTGTTGCAGAAACGCCTTGATCCAATAGAGTTAACAAGATACAG
AAAAAAACA-GTGCATAAGAATGTT--GGGGATTCCCAATGTACCACCCATAAGCGCAAACAAGATCATGGCAAGACACA
TCATAGAGCAACAATATCATACCTGCGTGTTGCCACGAAAACACTGCGAAAACAGATTCATAAATATGTGGAAAAAAAA-
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>chr3A_1
GCCAGAGCTGCCTGCCGGCACGCCGCCGTACTGCAGCCCCGCAGCGATCTGTCTGCCGGAGCAGACACGCAGAGCAGGGG
GGCCCTGCCTGCCTGCCCGTCGATCGATCAGCGACGATGCATGCAGCGCCCCACTTCCCGAGAGAAAACG-TCCCCCGCG
ACTGCGCAATGATTGGCGCCCGCGGCGGCCACCGGTCCGGTCGTCCATGCATGCCGCCATGCCGCACACGTCGCGTCCCA
TGTCACCGTGCCTAGAACGGCGCGCGCGCTCCCACCCCTGTCCCTCGCGTCGCGGCGAGCGAGAGCACCGTCGCGTGCCC
CGCCCCGTCAATTCCATGTCCCCCCGGCCGGCCCAGCGGCGG---GGCGTCGCCTTGC------------GCGGCGCCAT
TGGCCGGGGACGGGAGGGGGTCCGGCCTGCTGGCCTCAAAAGAGCCGCCCGGCCCAGCGCCTCCCTCGCTGCATCGACCG
CGTCCTTTTCCGCCCTTTCCCTTTTCTCTCCCATTCAGGGCACCTCGGCTGCGTTCGCCAGATCTGCTCGCGCCGTGCCG
CTCGCTTCCACGGGAGATATTCTCCGGCCACCACCACCACCGCTAGGCAACAAGAATATACTGCGCCGGTGCGCCCCCAC
CACCCCCTTCTTGTCGTGTTTTCTCTTCGTGAATGAAAGCTGCAAGCTAAAGCCTTGGCCTTGGCGGTCAT--ATTGAAG
GATCTGGAAGAGCTGATGCGTACACCTCTTCATGGCATG---GGGTTGCGTGATCTGATCGGGAGGACTACCATTTTGGC
GGTCAATTAGACCAAACTTTCCTTTCACTAGCTTGTCTCCCCGCTTTGCCTCTTTTTCTTTTTCTGAGCCTTGCCTTTCA
TGCTCTTGTCACATACTCTTGCAGCACAGTACAGTACCAGCCTG---CTTTTCCTTTGAGCAGGCTACATAGATACTCT-
--------------TGCCTCATCATAGTATAAAACGAGGCGTGCCTAGGCCACCCTG----GTGTGATACGTAGACACTG
ACCCGCCATCTCGGGCTAGCAAGCAAGCAAGCTAGGCATCCATA---CCTCCGGTCGGCAATGAGGAAGGGCAGCGAGTG
CACCAGGATCAGCCCGGAGACCACCACCAGCGGCAACCCCATGTTCTCCCGCCAGGCCAGCAGGTCCGGCGGCCGGTCGG
CGGCGCCGTCGGAGCCGGACGCCCGGCCGAGGCAGCCGCGCGGAGGCTGCCGCCTGCTGAGGACCGCGCGGTGGACCGCC
GCGAGGTTCTACCAGCGCGCGAGGGTGAGCGTCGTCACGGCGTTCTGGTCGGCCCCGAGCAGGAGAGGCTCTTCCAGTTC
CACTTCCAGTGCCGCCTCACGCTCGCCGGAGTATACGCCGGCGAGGAACAGCAGCAGGCGGCAGTCCGGGCCGGTGGTCG
TCGCCGATGACTCCCACAAGAGCGAAGCCGTGGAGGAGTGCATCAGGTTCATGAACTCCTCGTCCAGGAAGTACCGCTAG
TGTTTTGTTTTTTTGATTCTGTTTCTACCCTCTGCGCGGATGCT-AGCGTCTTCCCCCCTGTAATTTCCCCCC-TTCTTG
TTCTTGGCCTTTCATCTGTGTGCGCATTTGATCTAAGCTTGTGGAAATGATACGTACGGCCGGATGCATCTTTCTCATCT
CTTCTGTACTCTGGAATCTGTCGCTCTTACATTTTCAACACATGTGCTTGTCAATATTTGTCACCTCGTGCGAGCCCAGC
CACCGACAAGCTAATTTCCGTGATGTGGTGTGTCACAATGGCTTGATGCATTTG---------------ATCCAATAGTT
TGATCTTTGTGAGAAAACAGGCGTCCCATCGATTTTCTGTTACAGAAACGCCTTGATCCAATAGAGTTAACAAGATACAG
AAAAAAA---GTGCATAAGAATGAATGGGAGACTCCCAATGTACCACCCATAAGTGCAAACAAAATCATGGCAAGACACA
TCATAGAGCAACAAGATCATACCGGCTTGTTGCCACGGAAACACTGCGAAAACAGATTCATAAATGTGTGCTGAAAAACA
AATAAACTAATGCGAAAGCAAATATGTAT----AAGATTTCTCAATTTACATTTTAGAAACAATAAAACATACTGTGAAG
CACGTGAAAGATGT-AATGTACAACAAGAGAAAA----------------------------------------------
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>SNPs
--------S--------------------------------------S--------------------------------
----------------------------------------------------------------------S---------
----------------S--------------------------S------------------------------------
---------------------S----------------------------------------------------------
-------------------S----------------------SSS--------------S-------S------------
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----------------------------------------------------------S------------S--------
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--S-S--------------------------------------------------------S---------SS-------
--------------------------------------SSSS--------------------------------------
----------------S---------------------------------------------------------------
---------------------------------------S------S-------------------S-------------
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-----------------------------------------S----S---------------------------------
---------------------------------------------------------S----------------------
-----------------------S----S-----------------------------------------------S---
--S-------------------------------------------------------------S---S-----------
---------------------------------------------------------------S----------------
----------------------------------------------------------------------------S---
----------S---------S---SS------------------------------------------------------
S--------------------------------------------------------------------------S----
--------------------S-----------------------------------------------------------
------------------------------SS-SSSS--SSSS-SS--SSSS-SSSSSSSSSSSSSSSS-----------
---------------------------------------------------------------------S----------
-------S-S-----------------------------S-----------------------------------S----
------------S----------SSS-S---------------S---S----S---------------------------
--S-------S----S---------S-S-SSSS----------S------------------------------------
---------S--SSS------S------------SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSS
>forward_151
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---------------------------------------------------CGTTTCCCGAGAGAAAACGC---------
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>reverse_1960
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---------------------------------------CGTACCACCCATAGCGCAAA---------------------
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